INFO 2025-06-26 12:35:46,691 process.py process_mission():429 [1] commandline = src/data/process_dorado.py --start_year 2005 --end_year 2014 --num_cores 1 -v --noinput --clobber INFO 2025-06-26 12:35:46,691 process.py process_mission():434 [1] dorado_info[mission]["comment"] = AUVCTD mission - Volume survey around M0 for Scholin - ctdToUse = ctd1 INFO 2025-06-26 12:35:46,691 process.py process_mission():449 [1] Processing AUVCTD mission 2007.120.01 by user docker_user on host eae60d30a712 INFO 2025-06-26 12:35:46,691 process.py download_process():165 [1] Download and processing steps for 2007.120.01 INFO 2025-06-26 12:35:46,691 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2007/2007120/2007.120.01 INFO 2025-06-26 12:35:46,691 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2007/2007120/2007.120.01 to /data/auv_data/dorado/missionlogs/2007.120.01 INFO 2025-06-26 12:35:48,405 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2007.120.01 INFO 2025-06-26 12:35:48,406 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.120.01/ctdDriver.log (2423651 bytes) INFO 2025-06-26 12:35:48,579 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2007.120.01/ctdDriver.log: [ 12 140 314 353 456 624 646 943 946 990 1023 1315 1467 1493 1526 1606 1705 2097 2114 2237 2247 2283 2338 2366 2717 3080 3181 3206 3348 3499 3931 4847 4862 5240 5272 5962 7062 7246 7524 7831 8077 8831 10519 10639 10899 11266 11561 11604 11723 11957 11961 12169 13263 16120 16282 16899 17072 17406 19082 20924 23118 25167 25350 25934] INFO 2025-06-26 12:35:48,588 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.120.01/ctdDriver2.log (2423469 bytes) INFO 2025-06-26 12:35:48,761 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2007.120.01/ctdDriver2.log: [ 10 139 228 313 351 454 623 645 680 941 1021 1466 1524 1549 1704 1780 2095 2113 2246 2282 2337 2365 2427 2437 3078 3180 3205 3498 4665 4861 5137 5237 5269 5788 5960 7059 7243 7725 7829 8075 9420 10382 10518 10897 11264 11274 11560 11722 11943 11955 12168 13262 16280 18449 19080 19527 23118 25167 25932] INFO 2025-06-26 12:35:48,768 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.120.01/gps.log (44492 bytes) INFO 2025-06-26 12:35:48,780 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.120.01/hydroscatlog.log (1656674 bytes) INFO 2025-06-26 12:35:48,983 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2007.120.01/hydroscatlog.log: [ 27 78 80 85 96 303 507 698 720 755 824 882 1016 1094 1096 1125 1624 2170 2310 2356 2412 3421 3572 4738 4934 5083 5211 5311 5343 5992 7133 7317 7902 8750 10691 11674 11793 12027 13093 13331 13421 17472 21412 24451 24644 25412 25996 27436] INFO 2025-06-26 12:35:48,988 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.120.01/navigation.log (8092094 bytes) INFO 2025-06-26 12:35:49,608 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.120.01/isuslog.log (154421 bytes) INFO 2025-06-26 12:35:49,628 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.120.01/parosci.log (2685446 bytes) INFO 2025-06-26 12:35:49,849 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2007.120.01/parosci.log: [ 17 18 37 38 58 59 60 61 216 217 456 457 618 620 624 625 643 949 950 951 952 1261 1381 1382 1552 1553 1808 1810 1885 1886 1887 2241 2242 2960 2962 2963 3314 3315 3316 3429 3787 4919 4920 4976 4977 5119 5120 5121 6629 6631 6679 6680 6681 6822 6823 6972 8012 8013 8014 8563 8564 9936 9937 9938 9939 10024 10195 10357 10358 10804 10805 10820 10822 10886 10887 11940 11941 11942 12206 12207 12290 12291 12292 12863 12864 12865 14534 14908 14909 14910 15027 15028 17838 18143 19347 23116 23699 23700 23701 24033 24515 24938 24939 24940 27351 27352 27353 29036 29037 29038 31717 31718 31719 32992 32993 32994 33324 33325 33509 33511 33512 39032 39033 39035 47269 47270 47271 50256 51452 51825 53225 53624 53625] INFO 2025-06-26 12:35:49,857 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.120.01/tailCone.log (343003 bytes) INFO 2025-06-26 12:35:49,906 logs2netcdfs.py download_process_logs():807 [1] Time to process: 1.50 seconds WARNING 2025-06-26 12:35:49,906 process.py download_process():196 [1] No lopc.bin file for 2007.120.01 INFO 2025-06-26 12:35:49,906 process.py calibrate():227 [1] Calibration steps for 2007.120.01 INFO 2025-06-26 12:35:49,999 calibrate.py _nudge_pos():1680 [1] seg# end_sec_diff end_lon_diff end_lat_diff len(segi) seg_min u_drift (cm/s) v_drift (cm/s) start datetime of segment INFO 2025-06-26 12:35:50,001 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 12:35:50,761 calibrate.py _nudge_pos():1806 [1] 106: 0.010 -0.0004177 0.0001084 2798 9.45 -6.558 2.126 2007-04-30T19:20:35.531609344 INFO 2025-06-26 12:35:51,457 calibrate.py _nudge_pos():1806 [1] 180: 0.020 0.0001653 0.0006712 5035 16.88 1.453 7.368 2007-04-30T19:38:41.527213568 INFO 2025-06-26 12:35:52,084 calibrate.py _nudge_pos():1806 [1] 247: 0.020 -0.0003152 0.0000544 1915 6.40 -7.310 1.577 2007-04-30T19:46:11.526386432 INFO 2025-06-26 12:35:52,788 calibrate.py _nudge_pos():1806 [1] 323: 0.020 0.0000327 0.0018689 5422 18.13 0.268 19.102 2007-04-30T20:05:35.526647040 INFO 2025-06-26 12:35:53,263 calibrate.py _nudge_pos():1806 [1] 373: 0.020 -0.0002283 0.0000373 1851 6.18 -5.480 1.118 2007-04-30T20:12:35.527875072 INFO 2025-06-26 12:35:53,837 calibrate.py _nudge_pos():1806 [1] 434: 0.020 0.0001070 0.0003366 2541 8.50 1.867 7.341 2007-04-30T20:22:05.528827136 INFO 2025-06-26 12:35:53,931 calibrate.py _nudge_pos():1806 [1] 444: 0.010 0.0000129 -0.0000234 20 0.06 30.319 -68.329 2007-04-30T20:22:18.527936768 INFO 2025-06-26 12:35:54,211 calibrate.py _nudge_pos():1806 [1] 474: 0.010 0.0000706 0.0002951 2428 8.10 1.293 6.753 2007-04-30T20:30:53.532656384 INFO 2025-06-26 12:35:54,240 calibrate.py _nudge_pos():1806 [1] 477: 0.010 -0.0000109 -0.0000098 30 0.10 -16.688 -18.814 2007-04-30T20:31:01.532108544 INFO 2025-06-26 12:35:54,660 calibrate.py _nudge_pos():1806 [1] 521: 0.010 -0.0003326 0.0001393 1964 6.55 -7.535 3.943 2007-04-30T20:38:17.532240384 INFO 2025-06-26 12:35:54,954 calibrate.py _nudge_pos():1806 [1] 552: 0.010 0.0000893 0.0017838 5572 18.60 0.713 17.774 2007-04-30T20:57:23.533734144 INFO 2025-06-26 12:35:55,392 calibrate.py _nudge_pos():1806 [1] 598: 0.010 -0.0002318 0.0000419 1900 6.35 -5.417 1.225 2007-04-30T21:04:29.534550784 INFO 2025-06-26 12:35:55,466 calibrate.py _nudge_pos():1862 [1] 575: - - - 2 0.00 - - INFO 2025-06-26 12:35:55,466 calibrate.py _nudge_pos():1868 [1] Points in final series = 34263 INFO 2025-06-26 12:35:55,510 calibrate.py _depth_process():2162 [1] Removing depths outside of valid_depth_range=Range(min=-0.5, max=32) for self.args.mission=2007.120.01 INFO 2025-06-26 12:35:56,363 calibrate.py _depth_process():2175 [1] Setting 20 depths values to NaN WARNING 2025-06-26 12:35:56,365 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 8.33 Hz INFO 2025-06-26 12:36:00,031 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 3 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 12:36:01,988 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 21 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 12:36:02,194 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 21 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 12:36:02,196 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2007.120.01/ctd1.nc INFO 2025-06-26 12:36:02,197 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 12:36:02,197 calibrate.py _range_qc_combined_nc():910 [1] Checked for data outside of these variables and ranges: [('ctd1_salinity', Range(min=30, max=40))] INFO 2025-06-26 12:36:02,197 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 12:36:03,713 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 22 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 12:36:03,920 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 22 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 12:36:03,922 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2007.120.01/ctd2.nc INFO 2025-06-26 12:36:03,923 calibrate.py _range_qc_combined_nc():898 [1] Setting 174 ctd2_salinity values to NaN INFO 2025-06-26 12:36:03,924 calibrate.py _range_qc_combined_nc():910 [1] Checked for data outside of these variables and ranges: [('ctd2_salinity', Range(min=30, max=40))] INFO 2025-06-26 12:36:03,924 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 ERROR 2025-06-26 12:36:03,934 calibrate.py process_logs():3542 [1] Error processing biolume: biolume has no orig_data - likely a missing or zero-sized .log file in missionlogs/2007.120.01 ERROR 2025-06-26 12:36:03,934 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2007.120.01 ERROR 2025-06-26 12:36:03,934 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2007.120.01 INFO 2025-06-26 12:36:03,943 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2007.120.01/dorado_2007.120.01_cal.nc INFO 2025-06-26 12:36:06,104 calibrate.py write_netcdf():3512 [1] Data variables written: ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_salinity, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, depth_filtdepth, depth_filtpres, depth_time, gps_latitude, gps_longitude, gps_time, hs2_bbp470, hs2_bbp676, hs2_depth, hs2_fl676, hs2_time, isus_nitrate, isus_quality, isus_temp, isus_time, navigation_depth, navigation_latitude, navigation_longitude, navigation_mWaterSpeed, navigation_pitch, navigation_posx, navigation_posy, navigation_roll, navigation_time, navigation_yaw, nudged_latitude, nudged_longitude, tailcone_propRpm, tailcone_time, time INFO 2025-06-26 12:36:06,108 process.py align():251 [1] Alignment steps for 2007.120.01 INFO 2025-06-26 12:36:06,131 align.py process_cal():139 [1] Processing dorado_2007.120.01_cal.nc from /data/auv_data/dorado/missionnetcdfs/2007.120.01 INFO 2025-06-26 12:36:06,144 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:36:06,146 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 4.98 INFO 2025-06-26 12:36:06,176 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:36:06,178 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 4.98 INFO 2025-06-26 12:36:06,207 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:36:06,209 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 4.98 INFO 2025-06-26 12:36:06,226 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 12:36:06,226 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 12:36:06,237 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:36:06,239 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 4.98 INFO 2025-06-26 12:36:06,268 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2007.120.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:06,270 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:06,296 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2007.120.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:06,299 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:06,325 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2007.120.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:06,328 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:06,353 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.120.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:06,355 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:06,381 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.120.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:06,383 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:06,409 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.120.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:06,411 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:06,438 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.120.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:06,441 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:06,468 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.120.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:06,471 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:06,497 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.120.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:06,499 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:06,525 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.120.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:06,528 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:06,554 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.120.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:06,557 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:06,583 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.120.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:06,585 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:06,611 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.120.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:06,613 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:06,639 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.120.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:06,642 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:06,668 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.120.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:06,671 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:06,697 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.120.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:06,700 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:06,726 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.120.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:06,728 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:06,755 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.120.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:06,758 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:06,785 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.120.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:06,788 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:06,815 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.120.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:06,817 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:06,851 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.70 INFO 2025-06-26 12:36:06,877 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.70 INFO 2025-06-26 12:36:06,903 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.70 INFO 2025-06-26 12:36:06,927 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 1.03 INFO 2025-06-26 12:36:06,941 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2007.120.01/dorado_2007.120.01_align.nc INFO 2025-06-26 12:36:06,991 align.py write_netcdf():342 [1] Data variables written: ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_latitude, ctd1_longitude, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_latitude, ctd2_longitude, ctd2_salinity, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, hs2_bbp470, hs2_bbp676, hs2_depth, hs2_fl676, hs2_latitude, hs2_longitude, hs2_time, isus_depth, isus_latitude, isus_longitude, isus_nitrate, isus_quality, isus_temp, isus_time, navigation_depth, navigation_latitude, navigation_longitude, navigation_mWaterSpeed, navigation_pitch, navigation_roll, navigation_time, navigation_yaw, tailcone_depth, tailcone_latitude, tailcone_longitude, tailcone_propRpm, tailcone_time INFO 2025-06-26 12:36:06,993 process.py resample():273 [1] Resampling steps for 2007.120.01 INFO 2025-06-26 12:36:06,993 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 12:36:07,016 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2007.120.01/dorado_2007.120.01_align.nc mission netCDF file INFO 2025-06-26 12:36:07,021 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2007.120.01/dorado_2007.120.01_align.nc mission netCDF file INFO 2025-06-26 12:36:07,022 resample.py get_mission_start_end():1145 [1] navigation: 2007-04-30T19:09:55.195475456 to 2007-04-30T21:04:36.934044160 (0 days 00:00:00 before mission_end) INFO 2025-06-26 12:36:07,023 resample.py get_mission_start_end():1145 [1] hs2 : 2007-04-30T19:09:34.466895360 to 2007-04-30T21:04:36.924044544 (0 days 00:00:00.009999616 before mission_end) INFO 2025-06-26 12:36:07,025 resample.py get_mission_start_end():1145 [1] ctd1 : 2007-04-30T19:09:52.585654272 to 2007-04-30T21:04:36.924044544 (0 days 00:00:00.009999616 before mission_end) INFO 2025-06-26 12:36:07,026 resample.py get_mission_start_end():1145 [1] ctd2 : 2007-04-30T19:09:52.705646080 to 2007-04-30T21:04:36.774054912 (0 days 00:00:00.159989248 before mission_end) INFO 2025-06-26 12:36:07,027 resample.py get_mission_start_end():1145 [1] isus : 2007-04-30T19:10:37.412583424 to 2007-04-30T21:04:36.164096768 (0 days 00:00:00.769947392 before mission_end) INFO 2025-06-26 12:36:07,028 resample.py get_mission_start_end():1145 [1] tailcone : 2007-04-30T19:09:28.307317504 to 2007-04-30T21:04:36.824051712 (0 days 00:00:00.109992448 before mission_end) INFO 2025-06-26 12:36:07,029 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2007.120.01/dorado_2007.120.01_align.nc mission netCDF file INFO 2025-06-26 12:36:07,029 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,123 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,141 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,158 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,176 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,192 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,209 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,225 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,240 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,255 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,270 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,285 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,299 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,314 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,329 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,346 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,360 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,376 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,391 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,407 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,423 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,438 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,455 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,467 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,478 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,488 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,500 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:07,628 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2007.120.01/dorado_2007.120.01_1S.nc INFO 2025-06-26 12:36:09,021 create_products.py _get_best_ctd():380 [1] ctdToUse = ctd1 INFO 2025-06-26 12:36:15,351 create_products.py gulper_odv():522 [1] Wrote 6 Gulper data lines to /data/auv_data/dorado/missionodvs/2007.120.01/dorado_2007.120.01_1S_Gulper.txt INFO 2025-06-26 12:36:15,351 process.py archive():337 [1] Archiving steps for 2007.120.01 INFO 2025-06-26 12:36:15,351 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2007.120.01/dorado_2007.120.01, BASE_PATH = /data/auv_data INFO 2025-06-26 12:36:15,352 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2007.120.01/dorado_2007.120.01 files to /Volumes/AUVCTD/surveys/2007/netcdf INFO 2025-06-26 12:36:15,353 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2007/netcdf/dorado_2007.120.01_1S.nc INFO 2025-06-26 12:36:15,364 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.120.01/dorado_2007.120.01_1S.nc /Volumes/AUVCTD/surveys/2007/netcdf done. INFO 2025-06-26 12:36:15,365 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2007/netcdf/dorado_2007.120.01_cal.nc INFO 2025-06-26 12:36:15,396 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.120.01/dorado_2007.120.01_cal.nc /Volumes/AUVCTD/surveys/2007/netcdf done. INFO 2025-06-26 12:36:15,397 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2007/netcdf/dorado_2007.120.01_align.nc INFO 2025-06-26 12:36:15,428 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.120.01/dorado_2007.120.01_align.nc /Volumes/AUVCTD/surveys/2007/netcdf done. INFO 2025-06-26 12:36:15,441 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.120.01/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007120/2007.120.01 done. INFO 2025-06-26 12:36:15,453 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.120.01/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007120/2007.120.01 done. INFO 2025-06-26 12:36:15,457 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.120.01/gps.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007120/2007.120.01 done. INFO 2025-06-26 12:36:15,467 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.120.01/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007120/2007.120.01 done. INFO 2025-06-26 12:36:15,492 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.120.01/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007120/2007.120.01 done. INFO 2025-06-26 12:36:15,497 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.120.01/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007120/2007.120.01 done. INFO 2025-06-26 12:36:15,509 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.120.01/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007120/2007.120.01 done. INFO 2025-06-26 12:36:15,522 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.120.01/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007120/2007.120.01 done. INFO 2025-06-26 12:36:15,522 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 12:36:15,523 archive.py copy_to_AUVTCD():133 [1] Removing /Volumes/AUVCTD/surveys/2007/odv/dorado_2007.120.01_1S_Gulper.txt INFO 2025-06-26 12:36:15,527 archive.py copy_to_AUVTCD():136 [1] copyfile /data/auv_data/dorado/missionodvs/2007.120.01/dorado_2007.120.01_1S_Gulper.txt /Volumes/AUVCTD/surveys/2007/odv done. INFO 2025-06-26 12:36:15,528 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.120.01/dorado_2007.120.01_processing.log /Volumes/AUVCTD/surveys/2007/netcdf